Replication protein A interacts with AID to promote deamination of somatic hypermutation targets (original) (raw)

• Jung, D. & Alt, F. W. Unraveling V(D)J recombination: Insights into gene regulation. Cell 116, 299–311 (2004)
  Article CAS Google Scholar
• Manis, J. P., Tian, M. & Alt, F. W. Mechanism and control of class-switch recombination. Trends Immunol. 23, 31–39 (2002)
  Article CAS Google Scholar
• Honjo, T., Kinoshita, K. & Muramatsu, M. Molecular mechanism of class switch recombination: linkage with somatic hypermutation. Annu. Rev. Immunol. 20, 165–196 (2002)
  Article CAS Google Scholar
• Papavasiliou, F. N. & Schatz, D. G. Somatic hypermutation of immunoglobulin genes: merging mechanisms for genetic diversity. Cell 109, S35–S44 (2002)
  Article CAS Google Scholar
• Li, Z., Woo, C. J., Iglesias-Ussel, M. D., Ronai, D. & Scharff, M. D. The generation of antibody diversity through somatic hypermutation and class switch recombination. Genes Dev. 18, 1–11 (2004)
  Article Google Scholar
• Chaudhuri, J. & Alt, F. W. Class switch recombination: interplay of transcription, DNA deamination and DNA repair. Nature Rev. Immunol 4, 541–552 (2004)
  Article CAS Google Scholar
• Muramatsu, M. et al. Class switch recombination and hypermutation require activation-induced cytidine deaminase (AID), a potential RNA editing enzyme. Cell 102, 553–563 (2000)
  Article CAS Google Scholar
• Revy, P. et al. Activation-induced cytidine deaminase (AID) deficiency causes the autosomal recessive form of the Hyper-IgM syndrome (HIGM2). Cell 102, 565–575 (2000)
  Article CAS Google Scholar
• Betz, A. G., Neuberger, M. S. & Milstein, C. Discriminating intrinsic and antigen-selected mutational hotspots in immunoglobulin V genes. Immunol. Today 14, 405–411 (1993)
  Article CAS Google Scholar
• Neuberger, M. S. et al. Monitoring and interpreting the intrinsic features of somatic hypermutation. Immunol. Rev. 162, 107–116 (1998)
  Article CAS Google Scholar
• Storb, U. & Stavnezer, J. Immunoglobulin genes: generating diversity with AID and UNG. Curr. Biol. 12, 725–727 (2002)
  Article Google Scholar
• Yu, K. & Lieber, M. R. Nucleic acid structures and enzymes in the immunoglobulin class switch recombination mechanism. DNA Repair 2, 1163–1174 (2003)
  Article CAS Google Scholar
• Nambu, Y. et al. Transcription-coupled events associating with immunoglobulin switch region chromatin. Science 302, 2137–2140 (2003)
  Article ADS CAS Google Scholar
• Chaudhuri, J. et al. Transcription-targeted DNA deamination by the AID antibody diversification enzyme. Nature 422, 726–730 (2003)
  Article ADS CAS Google Scholar
• Dickerson, S. K., Market, E., Besmer, E. & Papavasiliou, F. N. AID mediates hypermutation by deaminating single stranded DNA. J. Exp. Med. 197, 1291–1296 (2003)
  Article CAS Google Scholar
• Bransteitter, R., Pham, P., Scharff, M. D. & Goodman, M. F. Activation-induced cytidine deaminase deaminates deoxycytidine on single-stranded DNA but requires the action of RNase. Proc. Natl Acad. Sci. USA 100, 4102–4107 (2003)
  Article ADS CAS Google Scholar
• Sohail, A., Klapacz, J., Samaranayake, M., Ullah, A. & Bhagwat, A. S. Human activation-induced cytidine deaminase causes transcription-dependent, strand-biased C to U deaminations. Nucleic Acids Res. 31, 2990–2994 (2003)
  Article CAS Google Scholar
• Petersen-Mahrt, S. K., Harris, R. S. & Neuberger, M. S. AID mutates E. coli suggesting a DNA deamination mechanism for antibody diversification. Nature 418, 99–103 (2002)
  Article ADS CAS Google Scholar
• Tian, M. & Alt, F. W. Transcription-induced cleavage of immunoglobulin switch regions by nucleotide excision repair nucleases in vitro. J. Biol. Chem. 275, 24163–24172 (2000)
  Article CAS Google Scholar
• Yu, K., Chedin, F., Hsieh, C. L., Wilson, T. E. & Lieber, M. R. R-loops at immunoglobulin class switch regions in the chromosomes of stimulated B cells. Nature Immunol. 4, 442–451 (2003)
  Article CAS Google Scholar
• Pham, P., Bransteitter, R., Petruska, J. & Goodman, M. F. Processive AID-catalysed cytosine deamination on single-stranded DNA simulates somatic hypermutation. Nature 424, 103–107 (2003)
  Article ADS CAS Google Scholar
• Shinkura, R. et al. The influence of transcriptional orientation on endogenous switch region function. Nature Immunol. 4, 435–441 (2003)
  Article CAS Google Scholar
• Storb, U. et al. Cis-acting sequences that affect somatic hypermutation of Ig genes. Immunol. Rev. 162, 153–160 (1998)
  Article CAS Google Scholar
• Betz, A. G. et al. Elements regulating somatic hypermutation of an immunoglobulin kappa gene: critical role for the intron enhancer/matrix attachment region. Cell 77, 239–248 (1994)
  Article CAS Google Scholar
• Peters, A. & Storb, U. Somatic hypermutation of immunoglobulin genes is linked to transcription initiation. Immunity 4, 57–65 (1996)
  Article CAS Google Scholar
• Fukita, Y., Jacobs, H. & Rajewsky, K. Somatic hypermutation in the heavy chain locus correlates with transcription. Immunity 9, 105–114 (1998)
  Article CAS Google Scholar
• Yelamos, J. et al. Targeting of non-Ig sequences in place of the V segment by somatic hypermutation. Nature 376, 225–229 (1995)
  Article ADS CAS Google Scholar
• Pasqualucci, L. et al. BCL-6 mutations in normal germinal center B cells: evidence of somatic hypermutation acting outside Ig loci. Proc. Natl Acad. Sci. USA 95, 11816–11821 (1998)
  Article ADS CAS Google Scholar
• Shen, H. M., Peters, A., Baron, B., Zhu, X. & Storb, U. Mutation of BCL-6 gene in normal B cells by the process of somatic hypermutation of Ig genes. Science 280, 1750–1752 (1998)
  Article ADS CAS Google Scholar
• Michael, N. et al. Effects of sequence and structure on the hypermutability of immunoglobulin genes. Immunity 16, 123–134 (2002)
  Article CAS Google Scholar
• Ta, V. T. et al. AID mutant analyses indicate requirement for class-switch-specific cofactors. Nature Immunol. 4, 843–848 (2003)
  Article CAS Google Scholar
• Wobbe, C. R. et al. Replication of simian virus 40 origin-containing DNA in vitro with purified proteins. Proc. Natl Acad. Sci. USA 84, 1834–1838 (1987)
  Article ADS CAS Google Scholar
• Wold, M. S. & Kelly, T. Purification and characterization of replication protein A, a cellular protein required for in vitro replication of simian virus 40 DNA. Proc. Natl Acad. Sci. USA 85, 2523–2527 (1988)
  Article ADS CAS Google Scholar
• Fairman, M. P. & Stillman, B. Cellular factors required for multiple stages of SV40 DNA replication in vitro. EMBO J. 7, 1211–1218 (1988)
  Article CAS Google Scholar
• Wold, M. S. Replication protein A: a heterotrimeric, single-stranded DNA-binding protein required for eukaryotic DNA metabolism. Annu. Rev. Biochem. 66, 61–92 (1997)
  Article CAS Google Scholar
• Yu, K., Huang, F. T. & Lieber, M. R. DNA substrate length and surrounding sequence affect the activation-induced deaminase activity at cytidine. J. Biol. Chem. 279, 6496–6500 (2004)
  Article CAS Google Scholar
• Matsunaga, T., Park, C. H., Bessho, T., Mu, D. & Sancar, A. Replication protein A confers structure-specific endonuclease activities to the XPF-ERCC1 and XPG subunits of human DNA repair excision nuclease. J. Biol. Chem. 271, 11047–11050 (1996)
  Article CAS Google Scholar
• Nagelhus, T. A. et al. A sequence in the N-terminal region of human uracil-DNA glycosylase with homology to XPA interacts with the C-terminal part of the 34-kDa subunit of replication protein A. J. Biol. Chem. 272, 6561–6566 (1997)
  Article CAS Google Scholar
• Tashiro, J., Kinoshita, K. & Honjo, T. Palindromic but not G-rich sequences are targets of class switch recombination. Int. Immunol. 13, 495–505 (2001)
  Article CAS Google Scholar
• Milstein, C., Neuberger, M. S. & Staden, R. Both DNA strands of antibody genes are hypermutation targets. Proc. Natl Acad. Sci. USA 95, 8791–8794 (1998)
  Article ADS CAS Google Scholar
• Ramiro, A. R., Stavropoulos, P., Jankovic, M. & Nussenzweig, M. C. Transcription enhances AID-mediated cytidine deamination by exposing single-stranded DNA on the nontemplate strand. Nature Immunol. 4, 452–456 (2003)
  Article CAS Google Scholar
• Artsimovitch, I. & Landick, R. The transcriptional regulator RfaH stimulates RNA chain synthesis after recruitment to elongation complexes by the exposed nontemplate DNA strand. Cell 109, 193–203 (2002)
  Article CAS Google Scholar
• Steitz, T. A. The structural basis of the transition from initiation to elongation phases of transcription, as well as translocation and strand separation, by T7 RNA polymerase. Curr. Opin. Struct. Biol. 14, 4–9 (2004)
  Article CAS Google Scholar
• Bolland, D. J. et al. Antisense intergenic transcription in V(D)J recombination. Nature Immunol. 5, 630–637 (2004)
  Article CAS Google Scholar
• Maldonado, E. et al. A human RNA polymerase II complex associated with SRB and DNA-repair proteins. Nature 381, 86–89 (1996)
  Article ADS CAS Google Scholar
• Yoshikawa, K. et al. AID enzyme-induced hypermutation in an actively transcribed gene in fibroblasts. Science 296, 2033–2036 (2002)
  Article ADS CAS Google Scholar
• Martin, A. & Scharff, M. D. Somatic hypermutation of the AID transgene in B and non-B cells. Proc. Natl Acad. Sci. USA 99, 12304–12308 (2002)
  Article ADS CAS Google Scholar
• Di Noia, J. & Neuberger, M. S. Altering the pathway of immunoglobulin hypermutation by inhibiting uracil-DNA glycosylase. Nature 419, 43–48 (2002)
  Article ADS CAS Google Scholar
• Rada, C. et al. Immunoglobulin isotype switching is inhibited and somatic hypermutation perturbed in UNG-deficient mice. Curr. Biol. 12, 1748–1755 (2002)
  Article CAS Google Scholar
• Henricksen, L. A., Umbricht, C. B. & Wold, M. S. Recombinant replication protein A: expression, complex formation, and functional characterization. J. Biol. Chem. 269, 11121–11132 (1994)
  CAS PubMed Google Scholar